Tools and Analysis

The BCDC is committed to making tools available to the community that are relevant for the analysis of cell types. We welcome recommendations for powerful cell processing tools, analysis tools, or methods that are freely available to the public. The Neuroscience Information Framework is available for more extensive search of neuroscience resources. If you have a tool you think would be useful please contact us at

BICCN Pipelines

Pipelines are available for multiple data types hosted in the BICCN network, including single-cell and single-nucleus transcriptomics, methylomics, and ATAC-seq data.


Visualization tools that support viewing of BICCN-generated data.

Atlases and Ontologies

Atlases and ontologies useful for referencing data.

Data Analysis

Data analysis tools that support BICCN efforts.

Spatial Registration

Tools useful for registration of data into Common Coordinate Frameworks.

Other Tools